AutoCloner

Multiple sequence alignment - TraesCS5A01G233100

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Download Multiple Sequence Alignment: (Fasta) (Clustal)

BLAST Results

Shown here are the results of a BLAST search against the genome using the input sequence. The pipeline uses this to extract flanking regions for cloning. If the result of the multiple sequence alignment is not as expected, these results could be used for further investigation.

	qseqid	sseqid	percentage.identical	alignment.length	no.mismatch	no.gap.openings	qstart	qend	sstart	send	evalue	bitscore
0	TraesCS5A01G233100	chr5A	100.000	3604	0	0	1	3604	448542429	448538826	0.000000e+00	6656.0
1	TraesCS5A01G233100	chr5A	79.146	609	88	25	1	598	312278748	312279328	5.640000e-103	385.0
2	TraesCS5A01G233100	chr5D	93.762	3014	159	18	1	2997	348264458	348261457	0.000000e+00	4497.0
3	TraesCS5A01G233100	chr5D	79.558	181	33	4	421	599	37634502	37634680	3.780000e-25	126.0
4	TraesCS5A01G233100	chr5B	94.078	2499	141	5	501	2997	408370165	408367672	0.000000e+00	3788.0
5	TraesCS5A01G233100	chr5B	89.689	611	58	4	2998	3604	474442735	474442126	0.000000e+00	774.0
6	TraesCS5A01G233100	chr5B	88.834	609	66	2	2998	3604	681221360	681220752	0.000000e+00	747.0
7	TraesCS5A01G233100	chr5B	88.197	610	69	3	2998	3604	358812013	358812622	0.000000e+00	725.0
8	TraesCS5A01G233100	chr5B	88.013	609	69	4	2998	3604	232986264	232986870	0.000000e+00	717.0
9	TraesCS5A01G233100	chr7D	89.362	611	61	4	2997	3604	365973452	365974061	0.000000e+00	765.0
10	TraesCS5A01G233100	chr7D	79.870	616	101	15	1	599	5990004	5989395	2.570000e-116	429.0
11	TraesCS5A01G233100	chr7D	80.298	604	90	15	1	599	20043538	20042959	2.570000e-116	429.0
12	TraesCS5A01G233100	chr7D	77.577	388	72	10	1	381	232473461	232473082	1.680000e-53	220.0
13	TraesCS5A01G233100	chr1A	89.034	611	65	2	2995	3604	462634593	462633984	0.000000e+00	756.0
14	TraesCS5A01G233100	chr1B	88.871	611	65	3	2997	3604	612171662	612171052	0.000000e+00	749.0
15	TraesCS5A01G233100	chr1B	75.429	350	61	20	1	341	14172941	14172608	2.900000e-31	147.0
16	TraesCS5A01G233100	chr3B	89.420	586	58	4	3022	3604	637051536	637050952	0.000000e+00	736.0
17	TraesCS5A01G233100	chr3B	87.521	609	74	2	2998	3604	760141122	760140514	0.000000e+00	702.0
18	TraesCS5A01G233100	chr3B	81.111	90	13	4	514	601	766986515	766986428	6.460000e-08	69.4
19	TraesCS5A01G233100	chr3B	96.970	33	1	0	498	530	720075481	720075449	5.030000e-04	56.5
20	TraesCS5A01G233100	chr7A	81.536	612	97	6	1	599	20167134	20166526	1.160000e-134	490.0
21	TraesCS5A01G233100	chr3A	80.287	558	74	14	43	599	277490343	277490865	4.360000e-104	388.0
22	TraesCS5A01G233100	chr2D	81.065	338	56	8	268	602	471967581	471967249	2.760000e-66	263.0
23	TraesCS5A01G233100	chr7B	75.325	616	113	24	1	598	179261213	179260619	3.570000e-65	259.0
24	TraesCS5A01G233100	chr4A	88.281	128	11	4	1	126	712859184	712859059	2.240000e-32	150.0
25	TraesCS5A01G233100	chr1D	82.955	176	21	6	1	172	20651552	20651382	2.240000e-32	150.0
26	TraesCS5A01G233100	chrUn	79.348	184	31	6	1	180	189317068	189316888	4.890000e-24	122.0

These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

	query	scaffold	start	end	length	rev.comp	avg.bitscore	max.bitscore	avg.percent.identical	query.start	query.end	num_hsp	groupid	homo_length
0	TraesCS5A01G233100	chr5A	448538826	448542429	3603	True	6656	6656	100.000	1	3604	1	chr5A.!!$R1	3603
1	TraesCS5A01G233100	chr5A	312278748	312279328	580	False	385	385	79.146	1	598	1	chr5A.!!$F1	597
2	TraesCS5A01G233100	chr5D	348261457	348264458	3001	True	4497	4497	93.762	1	2997	1	chr5D.!!$R1	2996
3	TraesCS5A01G233100	chr5B	408367672	408370165	2493	True	3788	3788	94.078	501	2997	1	chr5B.!!$R1	2496
4	TraesCS5A01G233100	chr5B	474442126	474442735	609	True	774	774	89.689	2998	3604	1	chr5B.!!$R2	606
5	TraesCS5A01G233100	chr5B	681220752	681221360	608	True	747	747	88.834	2998	3604	1	chr5B.!!$R3	606
6	TraesCS5A01G233100	chr5B	358812013	358812622	609	False	725	725	88.197	2998	3604	1	chr5B.!!$F2	606
7	TraesCS5A01G233100	chr5B	232986264	232986870	606	False	717	717	88.013	2998	3604	1	chr5B.!!$F1	606
8	TraesCS5A01G233100	chr7D	365973452	365974061	609	False	765	765	89.362	2997	3604	1	chr7D.!!$F1	607
9	TraesCS5A01G233100	chr7D	5989395	5990004	609	True	429	429	79.870	1	599	1	chr7D.!!$R1	598
10	TraesCS5A01G233100	chr7D	20042959	20043538	579	True	429	429	80.298	1	599	1	chr7D.!!$R2	598
11	TraesCS5A01G233100	chr1A	462633984	462634593	609	True	756	756	89.034	2995	3604	1	chr1A.!!$R1	609
12	TraesCS5A01G233100	chr1B	612171052	612171662	610	True	749	749	88.871	2997	3604	1	chr1B.!!$R2	607
13	TraesCS5A01G233100	chr3B	637050952	637051536	584	True	736	736	89.420	3022	3604	1	chr3B.!!$R1	582
14	TraesCS5A01G233100	chr3B	760140514	760141122	608	True	702	702	87.521	2998	3604	1	chr3B.!!$R3	606
15	TraesCS5A01G233100	chr7A	20166526	20167134	608	True	490	490	81.536	1	599	1	chr7A.!!$R1	598
16	TraesCS5A01G233100	chr3A	277490343	277490865	522	False	388	388	80.287	43	599	1	chr3A.!!$F1	556
17	TraesCS5A01G233100	chr7B	179260619	179261213	594	True	259	259	75.325	1	598	1	chr7B.!!$R1	597

AutoCloner calculated primer pairs

These primer pairs were selected by Autocloner to minimize primer penalty (calculated by Primer3), whilst remaining within the specified product range where possible.

Download AutoCloner chosen primers as CSV: (Forward) (Reverse)

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
536	588	0.533491	ATCGGCTAGGTGCACGTTAA	59.467	50.0	18.35	0.0	45.15	2.01	F
1140	1201	0.390603	CAACGCCGTTCCCAGTCATA	60.391	55.0	0.00	0.0	0.00	2.15	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1566	1627	0.734253	CCGAGAACAGAACGCTGGAG	60.734	60.0	0.00	0.00	46.60	3.86	R
3079	3151	0.309922	GCATCTACGAATCCGGACGA	59.690	55.0	20.07	4.89	40.78	4.20	R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
41	42	2.224670	ACTAGGTTCAATCCAAACGGCA	60.225	45.455	0.00	0.00	0.00	5.69
60	64	3.239712	GGCAGTTCAAAAAGAAACGAACG	59.760	43.478	0.00	0.00	42.01	3.95
61	65	4.092816	GCAGTTCAAAAAGAAACGAACGA	58.907	39.130	0.14	0.00	42.01	3.85
62	66	4.555747	GCAGTTCAAAAAGAAACGAACGAA	59.444	37.500	0.14	0.00	42.01	3.85
126	130	3.654143	TGATGCACCAGCCAGCCT	61.654	61.111	0.00	0.00	41.13	4.58
131	135	2.433446	CACCAGCCAGCCTCTGTT	59.567	61.111	0.00	0.00	0.00	3.16
292	299	2.092323	ACCTCGATTCTGACGATGACA	58.908	47.619	0.00	0.00	39.02	3.58
293	300	2.098280	ACCTCGATTCTGACGATGACAG	59.902	50.000	0.00	0.00	39.02	3.51
419	469	2.670148	GGGGGAGAGGCGACACAAT	61.670	63.158	0.00	0.00	0.00	2.71
452	503	2.363795	CTCCTGACGGTAGGGGCA	60.364	66.667	7.29	0.00	38.42	5.36
536	588	0.533491	ATCGGCTAGGTGCACGTTAA	59.467	50.000	18.35	0.00	45.15	2.01
567	620	7.720074	GGAAAACCGAATTTATCCTCCTCTAAT	59.280	37.037	0.00	0.00	30.69	1.73
599	652	2.959707	AGATCGGTTAGAGTTGCCCTAG	59.040	50.000	0.00	0.00	0.00	3.02
711	765	9.932207	TGGAACATAGAAAACTCGAATACTTAA	57.068	29.630	0.00	0.00	0.00	1.85
787	842	6.778821	TCATGTTCTCTTTCCCAACTTGATA	58.221	36.000	0.00	0.00	32.32	2.15
827	882	3.187022	GCAACTTGCACCCATTGAAAATC	59.813	43.478	8.97	0.00	44.26	2.17
850	910	9.574516	AATCTTTAGTACTTGGATGTTTGAAGT	57.425	29.630	0.00	0.00	34.36	3.01
851	911	8.974060	TCTTTAGTACTTGGATGTTTGAAGTT	57.026	30.769	0.00	0.00	32.27	2.66
852	912	9.403583	TCTTTAGTACTTGGATGTTTGAAGTTT	57.596	29.630	0.00	0.00	32.27	2.66
853	913	9.450807	CTTTAGTACTTGGATGTTTGAAGTTTG	57.549	33.333	0.00	0.00	32.27	2.93
854	914	8.740123	TTAGTACTTGGATGTTTGAAGTTTGA	57.260	30.769	0.00	0.00	32.27	2.69
855	915	7.639113	AGTACTTGGATGTTTGAAGTTTGAA	57.361	32.000	0.00	0.00	32.27	2.69
861	921	4.507756	GGATGTTTGAAGTTTGAACCTTGC	59.492	41.667	0.00	0.00	0.00	4.01
894	954	2.742774	GTGCAACCTTTTGATGTCACC	58.257	47.619	0.00	0.00	34.24	4.02
897	957	3.181477	TGCAACCTTTTGATGTCACCAAG	60.181	43.478	0.00	0.00	34.24	3.61
932	992	8.504812	TTTGCAAGCATACATAACTGAGATAA	57.495	30.769	0.00	0.00	0.00	1.75
1140	1201	0.390603	CAACGCCGTTCCCAGTCATA	60.391	55.000	0.00	0.00	0.00	2.15
1566	1627	2.482374	GCCGTGCTCAACATGCTC	59.518	61.111	0.00	0.00	33.60	4.26
1650	1711	0.894141	AGCTCATCGCAGACTCTGTT	59.106	50.000	7.89	0.00	42.51	3.16
1746	1807	3.621394	GTCGCCGCGAATCTCAGC	61.621	66.667	18.71	0.00	37.72	4.26
1794	1855	1.321474	TAGACCGTCGGTTGAACAGT	58.679	50.000	19.95	0.00	35.25	3.55
1891	1952	3.136763	CGAGCTCTCCTAACGGTACATA	58.863	50.000	12.85	0.00	0.00	2.29
1943	2004	7.124347	TGAAATTAAAGCTGTAACCGTAGTG	57.876	36.000	0.00	0.00	0.00	2.74
1948	2009	7.816945	TTAAAGCTGTAACCGTAGTGATTAC	57.183	36.000	0.00	0.00	0.00	1.89
2129	2190	2.432300	CCTCGCCAACCTCCCGTAT	61.432	63.158	0.00	0.00	0.00	3.06
2132	2193	1.227263	CGCCAACCTCCCGTATCTG	60.227	63.158	0.00	0.00	0.00	2.90
2150	2211	1.817099	GCAGGCCGTGATGAAGGAG	60.817	63.158	0.00	0.00	0.00	3.69
2255	2316	3.305177	GAAGGGCGCCCGTGTTCTA	62.305	63.158	39.33	0.00	41.95	2.10
2634	2695	5.920273	CGTTACCCGTTGACTACTTTTTCTA	59.080	40.000	0.00	0.00	0.00	2.10
2692	2756	8.405531	ACATTTGCGTTCTTATTATAAGTGCAT	58.594	29.630	20.30	10.73	0.00	3.96
2713	2777	8.504005	GTGCATATTTTGTTAGTGTGAGTACTT	58.496	33.333	0.00	0.00	32.19	2.24
2798	2863	1.756561	GGGCCAAACCGGTATGCAT	60.757	57.895	20.37	3.79	40.62	3.96
2804	2869	1.064505	CAAACCGGTATGCATGCTCTG	59.935	52.381	20.33	13.50	0.00	3.35
2814	2879	4.181010	ATGCTCTGGCGGCCGAAT	62.181	61.111	33.48	6.79	42.25	3.34
2819	2884	4.776322	CTGGCGGCCGAATCCACA	62.776	66.667	33.48	15.45	0.00	4.17
2832	2897	0.178861	ATCCACACTCTCCACCCCTT	60.179	55.000	0.00	0.00	0.00	3.95
2845	2910	2.995574	CCCTTCACCCGACCGACT	60.996	66.667	0.00	0.00	0.00	4.18
2888	2959	4.680237	TGGCCGTTGACCGAGCTG	62.680	66.667	0.00	0.00	39.56	4.24
2891	2962	4.680237	CCGTTGACCGAGCTGGCA	62.680	66.667	0.00	0.00	43.94	4.92
2893	2964	3.426568	GTTGACCGAGCTGGCAGC	61.427	66.667	31.56	31.56	43.94	5.25
2931	3002	0.581053	GTCCTATCGAGACGTCGTCC	59.419	60.000	21.40	12.01	46.85	4.79
2938	3009	3.753070	GAGACGTCGTCCATCGCCC	62.753	68.421	21.40	0.00	39.67	6.13
2941	3012	4.907034	CGTCGTCCATCGCCCTCG	62.907	72.222	0.00	0.00	39.67	4.63
2948	3019	4.569180	CATCGCCCTCGCCCCAAT	62.569	66.667	0.00	0.00	35.26	3.16
2962	3033	2.693210	CCCCAATGAAAAGGGCCATAT	58.307	47.619	6.18	0.00	44.06	1.78
2970	3041	5.393068	TGAAAAGGGCCATATCATCTCTT	57.607	39.130	6.18	0.00	0.00	2.85
2982	3053	7.393796	GCCATATCATCTCTTCATCTTTTCCAT	59.606	37.037	0.00	0.00	0.00	3.41
2991	3062	9.910267	TCTCTTCATCTTTTCCATTATCAATGA	57.090	29.630	0.46	0.00	41.46	2.57
3051	3122	4.106909	GTCCGTTTTGTCCAAATTTCGTT	58.893	39.130	0.00	0.00	0.00	3.85
3082	3154	2.671619	CAATGGGGCCGTGTTCGT	60.672	61.111	0.00	0.00	35.01	3.85
3093	3165	0.179192	CGTGTTCGTCCGGATTCGTA	60.179	55.000	7.81	0.00	33.95	3.43
3160	3233	0.669619	TCGTCCGTTCACTAGCACAA	59.330	50.000	0.00	0.00	0.00	3.33
3222	3298	5.437060	TCAAACATAGCTCCCAAATAGTCC	58.563	41.667	0.00	0.00	0.00	3.85
3251	3329	7.393841	ACCCAATCAAAATTTATTTGCATGG	57.606	32.000	13.36	13.36	36.00	3.66
3305	3384	5.352016	CCCAATCGAAATTTGTTTGCATGAT	59.648	36.000	0.00	0.00	0.00	2.45
3312	3393	9.421806	TCGAAATTTGTTTGCATGATAAGAATT	57.578	25.926	0.00	0.00	0.00	2.17
3357	3438	3.630204	GTGAGTCCACACGTGCTG	58.370	61.111	17.22	12.89	42.72	4.41
3407	3488	1.647545	ATGCCAATCACGCAACTCCG	61.648	55.000	0.00	0.00	40.22	4.63
3504	3587	4.156455	ACCCTTGGTTGTAGATGCTATG	57.844	45.455	0.00	0.00	27.29	2.23
3510	3593	3.069443	TGGTTGTAGATGCTATGATCGCA	59.931	43.478	0.00	0.00	42.25	5.10
3520	3603	2.029560	GCTATGATCGCACTCATCCTCA	60.030	50.000	1.51	0.00	37.13	3.86
3575	3658	3.943671	TCACCTCCCAAAACTTCTTCA	57.056	42.857	0.00	0.00	0.00	3.02
3583	3666	3.305608	CCCAAAACTTCTTCATGCTCCAC	60.306	47.826	0.00	0.00	0.00	4.02

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
12	13	3.119602	TGGATTGAACCTAGTCGTTCGAG	60.120	47.826	7.58	0.00	44.22	4.04
41	42	7.626144	TTTTTCGTTCGTTTCTTTTTGAACT	57.374	28.000	2.92	0.00	38.78	3.01
118	122	0.183492	TGAAACAACAGAGGCTGGCT	59.817	50.000	2.24	2.24	35.51	4.75
126	130	1.403679	CCGTTTGGCTGAAACAACAGA	59.596	47.619	10.99	0.00	43.76	3.41
245	252	1.002142	CCATCGTCGTCGCCATAACTA	60.002	52.381	0.00	0.00	36.96	2.24
246	253	0.248907	CCATCGTCGTCGCCATAACT	60.249	55.000	0.00	0.00	36.96	2.24
284	291	2.261671	GTCCACCGCTGTCATCGT	59.738	61.111	0.00	0.00	0.00	3.73
292	299	4.719369	GCTCGTTCGTCCACCGCT	62.719	66.667	0.00	0.00	36.19	5.52
293	300	4.719369	AGCTCGTTCGTCCACCGC	62.719	66.667	0.00	0.00	36.19	5.68
342	349	1.825090	CTGCTATTGTGTTGCCTCCA	58.175	50.000	0.00	0.00	0.00	3.86
419	469	1.959226	GAGCAAAACTCCCGCGTCA	60.959	57.895	4.92	0.00	39.75	4.35
439	489	0.040058	TTACTCTGCCCCTACCGTCA	59.960	55.000	0.00	0.00	0.00	4.35
440	490	1.188863	TTTACTCTGCCCCTACCGTC	58.811	55.000	0.00	0.00	0.00	4.79
441	491	1.648116	TTTTACTCTGCCCCTACCGT	58.352	50.000	0.00	0.00	0.00	4.83
452	503	4.772886	ATCCCACCGCTATTTTTACTCT	57.227	40.909	0.00	0.00	0.00	3.24
536	588	5.827756	AGGATAAATTCGGTTTTCCTCCTT	58.172	37.500	8.16	0.00	34.81	3.36
567	620	8.577296	CAACTCTAACCGATCTCCTATTCATTA	58.423	37.037	0.00	0.00	0.00	1.90
578	631	1.867363	AGGGCAACTCTAACCGATCT	58.133	50.000	0.00	0.00	0.00	2.75
663	717	6.267471	TCCAACTTGGAGTGCAAATTTCTTAT	59.733	34.615	6.39	0.00	42.67	1.73
711	765	3.753294	AGTCGTGGAAGACAAGTTGAT	57.247	42.857	10.54	0.00	43.24	2.57
815	870	8.348285	TCCAAGTACTAAAGATTTTCAATGGG	57.652	34.615	0.00	0.00	0.00	4.00
827	882	9.450807	CAAACTTCAAACATCCAAGTACTAAAG	57.549	33.333	0.00	0.00	30.00	1.85
861	921	2.031191	AGGTTGCACGTAACTTGTTTCG	59.969	45.455	10.15	10.15	0.00	3.46
873	933	2.384382	GTGACATCAAAAGGTTGCACG	58.616	47.619	0.00	0.00	34.50	5.34
914	974	6.678878	TCCGAGTTATCTCAGTTATGTATGC	58.321	40.000	1.89	0.00	40.44	3.14
920	980	7.437748	CCAAGATTCCGAGTTATCTCAGTTAT	58.562	38.462	1.89	0.00	40.44	1.89
932	992	0.320374	TCGTTGCCAAGATTCCGAGT	59.680	50.000	0.00	0.00	0.00	4.18
1134	1195	0.469917	CCGGGATGTTGCCTATGACT	59.530	55.000	0.00	0.00	0.00	3.41
1140	1201	2.610859	AGGTCCGGGATGTTGCCT	60.611	61.111	0.00	0.00	0.00	4.75
1566	1627	0.734253	CCGAGAACAGAACGCTGGAG	60.734	60.000	0.00	0.00	46.60	3.86
1746	1807	4.099120	CGTCGAAGAACTGGTAGAATCTG	58.901	47.826	0.00	0.00	39.69	2.90
1891	1952	2.100197	TGGATCGTCTCGGAAGATGTT	58.900	47.619	6.96	0.00	39.24	2.71
1943	2004	4.937620	TGGTTCATGACAGCAAGAGTAATC	59.062	41.667	0.00	0.00	0.00	1.75
1948	2009	2.082231	CCTGGTTCATGACAGCAAGAG	58.918	52.381	7.63	0.08	33.43	2.85
2072	2133	1.221021	GGATCCGAACGCTTCCCTT	59.779	57.895	0.00	0.00	0.00	3.95
2129	2190	1.078918	CTTCATCACGGCCTGCAGA	60.079	57.895	17.39	0.00	0.00	4.26
2132	2193	1.817099	CTCCTTCATCACGGCCTGC	60.817	63.158	0.00	0.00	0.00	4.85
2255	2316	1.305219	CGATGGCCCACACGTTGATT	61.305	55.000	0.00	0.00	0.00	2.57
2297	2358	1.296392	CATGAACACCTCCGGCTCA	59.704	57.895	0.00	0.00	0.00	4.26
2488	2549	2.588877	GATCCACATCACCGGGCG	60.589	66.667	6.32	0.00	0.00	6.13
2665	2729	7.908082	TGCACTTATAATAAGAACGCAAATGTC	59.092	33.333	0.00	0.00	0.00	3.06
2713	2777	7.666388	TCCTCCCACGAAAGAAAATTACAATAA	59.334	33.333	0.00	0.00	0.00	1.40
2798	2863	4.838152	GATTCGGCCGCCAGAGCA	62.838	66.667	23.51	0.00	39.83	4.26
2804	2869	4.778143	AGTGTGGATTCGGCCGCC	62.778	66.667	23.51	17.43	37.65	6.13
2814	2879	0.836400	GAAGGGGTGGAGAGTGTGGA	60.836	60.000	0.00	0.00	0.00	4.02
2819	2884	1.539124	GGGTGAAGGGGTGGAGAGT	60.539	63.158	0.00	0.00	0.00	3.24
2832	2897	3.680786	CAGCAGTCGGTCGGGTGA	61.681	66.667	0.00	0.00	40.96	4.02
2868	2939	2.342279	CTCGGTCAACGGCCAGAA	59.658	61.111	2.24	0.00	44.45	3.02
2908	2979	3.316821	CGTCTCGATAGGACGCGA	58.683	61.111	15.93	0.00	46.68	5.87
2931	3002	4.569180	ATTGGGGCGAGGGCGATG	62.569	66.667	0.00	0.00	41.24	3.84
2938	3009	2.192605	CCCTTTTCATTGGGGCGAG	58.807	57.895	0.00	0.00	39.76	5.03
2948	3019	5.103982	TGAAGAGATGATATGGCCCTTTTCA	60.104	40.000	0.00	2.45	0.00	2.69
2950	3021	5.393068	TGAAGAGATGATATGGCCCTTTT	57.607	39.130	0.00	0.00	0.00	2.27
2962	3033	9.910267	TTGATAATGGAAAAGATGAAGAGATGA	57.090	29.630	0.00	0.00	0.00	2.92
2982	3053	6.239714	GGAGTTGGCCTATCTCTCATTGATAA	60.240	42.308	3.32	0.00	0.00	1.75
2987	3058	3.387962	TGGAGTTGGCCTATCTCTCATT	58.612	45.455	3.32	0.00	0.00	2.57
2991	3062	1.482593	CGTTGGAGTTGGCCTATCTCT	59.517	52.381	3.32	0.00	0.00	3.10
3042	3113	3.440228	CACACCCAAACGAACGAAATTT	58.560	40.909	0.14	0.00	0.00	1.82
3051	3122	1.459455	CCATTGCCACACCCAAACGA	61.459	55.000	0.00	0.00	0.00	3.85
3079	3151	0.309922	GCATCTACGAATCCGGACGA	59.690	55.000	20.07	4.89	40.78	4.20
3082	3154	1.105167	ACCGCATCTACGAATCCGGA	61.105	55.000	6.61	6.61	40.78	5.14
3222	3298	8.997323	TGCAAATAAATTTTGATTGGGTTGTAG	58.003	29.630	0.00	0.00	0.00	2.74
3312	3393	8.357290	TGGCAACTAGTAGAACTATGAGTTTA	57.643	34.615	3.59	0.00	36.42	2.01
3315	3396	6.852420	TTGGCAACTAGTAGAACTATGAGT	57.148	37.500	3.59	0.00	29.08	3.41
3323	3404	5.479306	GACTCACATTGGCAACTAGTAGAA	58.521	41.667	0.00	0.00	37.61	2.10
3357	3438	3.431486	CCAGCTCTAGGATGACTTGGTTC	60.431	52.174	0.00	0.00	32.28	3.62
3407	3488	4.272504	TGAACAGTTTGTCGAGTTTCATCC	59.727	41.667	0.00	0.00	0.00	3.51
3492	3575	3.569701	TGAGTGCGATCATAGCATCTACA	59.430	43.478	0.00	0.00	46.96	2.74
3504	3587	1.202302	TCGTTGAGGATGAGTGCGATC	60.202	52.381	0.00	0.00	0.00	3.69
3510	3593	4.478206	AACATGATCGTTGAGGATGAGT	57.522	40.909	0.00	0.00	0.00	3.41
3575	3658	1.028330	CCTGCATTGACGTGGAGCAT	61.028	55.000	0.00	0.00	36.37	3.79
3583	3666	1.127951	GTTCGTAACCCTGCATTGACG	59.872	52.381	0.00	0.00	0.00	4.35

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.